YRC Public Data Repository - Protein Structure Prediction

Protein:	PUTA_ECOLI
Organism:	Escherichia coli
Length:	1320 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for PUTA_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|26247036, gi\|... - gi\|26247036\|ref\|NP_753076.1\| Delta-1-pyrroline-5-carboxylate dehydrogenase [Escherichia coli CFT073]...	1574.0	[0..1]	[1320..23]
gi\|91210106, gi\|... - gi\|91210106\|ref\|YP_540092.1\| delta-1-pyrroline-5-carboxylate dehydrogenase [Escherichia coli UTI89],...	1573.0	[0..1]	[1320..23]
gi\|191172422, gi... - gi\|75240621\|ref\|ZP_00724538.1\| COG4230: Delta 1-pyrroline-5-carboxylate dehydrogenase [Escherichia c... gi\|110641197, gi... - gi\|110641197\|ref\|YP_668927.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrrolin...	1570.0	[0..1]	[1320..1]
gi\|468875 - gi\|468875\|gb\|AAB59985.1\| PutA [Escherichia coli]	1570.0	[0..1]	[1320..1]
gi\|117623210, gi... - gi\|117623210\|ref\|YP_852123.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrrolin... gi\|162138454 - gi\|162138454\|ref\|YP_540092.2\| trifunctional transcriptional regulator/proline dehydrogenase/pyrrolin... gi\|218557904, gi... - gi\|218557904\|ref\|YP_002390817.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrro...	1569.0	[0..1]	[1320..1]
gi\|157080704, gi... - gi\|75190078\|ref\|ZP_00703345.1\| COG4230: Delta 1-pyrroline-5-carboxylate dehydrogenase [Escherichia c...	1567.0	[0..1]	[1320..1]
gi\|15830514, gi\|... - gi\|15830514\|ref\|NP_309287.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrroline... gi\|25284836 - pir\|\|D90786 proline dehydrogenase [imported] - Escherichia coli (strain O157:H7, substrain RIMD 0509... gi\|15830514, gi\|... - gi\|15830514\|ref\|NP_309287.1\| proline dehydrogenase [Escherichia coli O157:H7], gi\|13360720\|dbj\|BAB34...	1567.0	[0..1]	[1320..1]
gi\|218694550, gi... - gi\|218694550\|ref\|YP_002402217.1\| trifunctional transcriptional regulator/proline dehydrogenase/pyrro... gi\|193070799, gi... - gi\|75234353\|ref\|ZP_00718723.1\| COG4230: Delta 1-pyrroline-5-carboxylate dehydrogenase [Escherichia c...	1567.0	[0..1]	[1320..1]
gi\|194422934, gi... - gi\|83586442\|ref\|ZP_00925076.1\| COG4230: Delta 1-pyrroline-5-carboxylate dehydrogenase [Escherichia c...	1567.0	[0..1]	[1320..1]
gi\|188493464, gi... - gi\|75513464\|ref\|ZP_00735868.1\| COG4230: Delta 1-pyrroline-5-carboxylate dehydrogenase [Escherichia c...	1567.0	[0..1]	[1320..1]

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Predicted Domain #1

Region A:
Residues: [1-654]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MGTTTMGVKL DDATRERIKS AATRIDRTPH WLIKQAIFSY LEQLENSDTL PELPALLSGA  60
   61 ANESDEAPTP AEEPHQPFLD FAEQILPQSV SRAAITAAYR RPETEAVSML LEQARLPQPV 120
  121 AEQAHKLAYQ LADKLRNQKN ASGRAGMVQG LLQEFSLSSQ EGVALMCLAE ALLRIPDKAT 180
  181 RDALIRDKIS NGNWQSHIGR SPSLFVNAAT WGLLFTGKLV STHNEASLSR SLNRIIGKSG 240
  241 EPLIRKGVDM AMRLMGEQFV TGETIAEALA NARKLEEKGF RYSYDMLGEA ALTAADAQAY 300
  301 MVSYQQAIHA IGKASNGRGI YEGPGISIKL SALHPRYSRA QYDRVMEELY PRLKSLTLLA 360
  361 RQYDIGINID AEESDRLEIS LDLLEKLCFE PELAGWNGIG FVIQAYQKRC PLVIDYLIDL 420
  421 ATRSRRRLMI RLVKGAYWDS EIKRAQMDGL EGYPVYTRKV YTDVSYLACA KKLLAVPNLI 480
  481 YPQFATHNAH TLAAIYQLAG QNYYPGQYEF QCLHGMGEPL YEQVTGKVAD GKLNRPCRIY 540
  541 APVGTHETLL AYLVRRLLEN GANTSFVNRI ADTSLPLDEL VADPVTAVEK LAQQEGQTGL 600
  601 PHPKIPLPRD LYGHGRDNSA GLDLANEHRL ASLSSALLNS ALQKWQALPM LEQP

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	1000.0
Match:	1k87A
Description:	N-terminal domain of bifunctional PutA protein; Proline dehydrohenase domain of bifunctional PutA protein
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on the CH-NH group of donors	6.88732579226533	bayes_pls_golite062009
1-pyrroline-5-carboxylate dehydrogenase activity	6.68550231605226	bayes_pls_golite062009
proline dehydrogenase activity	6.14971937998605	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor	5.85251457886657	bayes_pls_golite062009
oxidoreductase activity	3.26500423104107	bayes_pls_golite062009
methylenetetrahydrofolate reductase (NADPH) activity	3.12501983452885	bayes_pls_golite062009
catalytic activity	2.15527229494088	bayes_pls_golite062009
binding	1.75614413431284	bayes_pls_golite062009
protein binding	1.38007868564575	bayes_pls_golite062009
transcription regulator activity	0.577994923694075	bayes_pls_golite062009
nucleic acid binding	0.464400793583132	bayes_pls_golite062009
DNA binding	0.359090400165996	bayes_pls_golite062009
transcription repressor activity	0.0464200104039556	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [655-1127]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 VAAGEMSPVI NPAEPKDIVG YVREATPREV EQALESAVNN APIWFATPPA ERAAILHRAA  60
   61 VLMESQMQQL IGILVREAGK TFSNAIAEVR EAVDFLHYYA GQVRDDFANE THRPLGPVVC 120
  121 ISPWNFPLAI FTGQIAAALA AGNSVLAKPA EQTPLIAAQG IAILLEAGVP PGVVQLLPGR 180
  181 GETVGAQLTG DDRVRGVMFT GSTEVATLLQ RNIASRLDAQ GRPIPLIAET GGMNAMIVDS 240
  241 SALTEQVVVD VLASAFDSAG QRCSALRVLC LQDEIADHTL KMLRGAMAEC RMGNPGRLTT 300
  301 DIGPVIDSEA KANIERHIQT MRSKGRPVFQ AVRENSEDAR EWQSGTFVAP TLIELDDFAE 360
  361 LQKEVFGPVL HVVRYNRNQL PELIEQINAS GYGLTLGVHT RIDETIAQVT GSAHVGNLYV 420
  421 NRNMVGAVVG VQPFGGEGLS GTGPKAGGPL YLYRLLANRP ESALAVTLAR QDA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	157.0
Match:	1bi9A
Description:	Aldehyde reductase (dehydrogenase), ALDH
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
oxidoreductase activity, acting on the aldehyde or oxo group of donors	5.09598561374689	bayes_pls_golite062009
oxidoreductase activity	4.47226217021998	bayes_pls_golite062009
1-pyrroline-5-carboxylate dehydrogenase activity	4.35175408702761	bayes_pls_golite062009
methylmalonate-semialdehyde dehydrogenase (acylating) activity	3.87605237828483	bayes_pls_golite062009
succinate-semialdehyde dehydrogenase [NAD(P)+] activity	3.64672165191647	bayes_pls_golite062009
3-chloroallyl aldehyde dehydrogenase activity	3.37049090049734	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	3.2867555127991	bayes_pls_golite062009
glutamate-5-semialdehyde dehydrogenase activity	3.27180265380824	bayes_pls_golite062009
benzaldehyde dehydrogenase activity	2.99564252244797	bayes_pls_golite062009
aldehyde dehydrogenase (NAD) activity	2.81851373615334	bayes_pls_golite062009
catalytic activity	2.80804701752928	bayes_pls_golite062009
succinate-semialdehyde dehydrogenase activity	2.71501590413507	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors	2.70230501280821	bayes_pls_golite062009
aldehyde dehydrogenase [NAD(P)+] activity	2.43250909158896	bayes_pls_golite062009
aminobutyraldehyde dehydrogenase activity	2.35958138496479	bayes_pls_golite062009
malonate-semialdehyde dehydrogenase (acetylating) activity	1.75951883819887	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor	1.6559690223037	bayes_pls_golite062009
retinal dehydrogenase activity	1.42867174920845	bayes_pls_golite062009
proline dehydrogenase activity	1.2295048221348	bayes_pls_golite062009
binding	1.06673666884196	bayes_pls_golite062009
retinoid binding	0.983782635681687	bayes_pls_golite062009
isoprenoid binding	0.900374761028287	bayes_pls_golite062009
protein binding	0.894945263794726	bayes_pls_golite062009
histidinol dehydrogenase activity	0.258030369394064	bayes_pls_golite062009
benzaldehyde dehydrogenase (NAD+) activity	0.23487570676521	bayes_pls_golite062009

Predicted Domain #3

Region A:
Residues: [1128-1320]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 KYPVDAQLKA ALTQPLNALR EWAANRPELQ ALCTQYGELA QAGTQRLLPG PTGERNTWTL  60
   61 LPRERVLCIA DDEQDALTQL AAVLAVGSQV LWPDDALHRQ LVKALPSAVS ERIQLAKAEN 120
  121 ITAQPFDAVI FHGDSDQLRA LCEAVAARDG TIVSVQGFAR GESNILLERL YIERSLSVNT 180
  181 AAAGGNASLM TIG

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	4.29
Match:	1uzbA
Description:	1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	2.93938556714521	bayes_pls_golite062009
oxidoreductase activity	2.88547553817764	bayes_pls_golite062009
glutamate-5-semialdehyde dehydrogenase activity	2.45871436399873	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	2.25747962901264	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	2.09879730266741	bayes_pls_golite062009
1-pyrroline-5-carboxylate dehydrogenase activity	1.99772103743229	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors, NAD or NADP as acceptor	1.75995216744595	bayes_pls_golite062009
oxidoreductase activity, acting on the CH-NH group of donors	1.5702273104568	bayes_pls_golite062009
proline dehydrogenase activity	1.05064081689012	bayes_pls_golite062009
methylmalonate-semialdehyde dehydrogenase (acylating) activity	0.500422972110959	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions:

Predicted functions:

Predicted functions: